genome.fa.s3.2.7.7.80.10.50.1000.109.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   

This is table  109  of  171  ( 20472 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35016024--35016058	13	2.7	13	83	16	54	77	8	0	14	0.99
35016548--35016598	24	2.1	24	82	7	59	19	13	3	62	1.46
35016678--35016845	30	5.7	29	79	10	144	35	22	3	38	1.72
35016700--35016845	30	4.9	29	81	9	161	34	22	3	39	1.71
35016700--35016911	59	3.6	58	78	4	199	34	22	2	40	1.69
35016700--35016888	30	6.3	29	78	9	157	34	22	2	40	1.68
35025888--35026011	48	2.6	47	82	10	135	39	14	20	25	1.91
35025936--35026029	48	2.0	48	85	8	129	41	17	19	22	1.90
35025939--35026920	208	4.7	208	88	1	1342	38	16	21	23	1.93
35026277--35026437	85	1.9	85	85	0	223	37	13	24	24	1.91
35026735--35026806	37	1.9	37	91	0	117	34	15	22	27	1.94
35026688--35026853	85	2.0	85	86	2	235	38	15	22	24	1.92
35028134--35028202	27	2.5	26	78	19	70	72	1	5	20	1.13
35028831--35029217	30	13.1	30	79	6	337	34	24	3	37	1.74
35035991--35036031	21	1.9	22	90	5	66	29	0	12	58	1.34
35046506--35046643	47	2.8	49	80	7	174	34	23	15	26	1.95
35049026--35049077	21	2.5	21	96	0	95	32	21	15	30	1.94
35051161--35051198	20	1.9	20	88	0	58	50	0	0	50	1.00
35054216--35054276	30	2.0	30	93	0	104	27	16	21	34	1.95
35058288--35058325	8	4.6	8	87	12	51	2	21	0	76	0.91
35058907--35058949	17	2.5	17	80	0	50	58	13	9	18	1.62
35059346--35059378	9	3.7	9	100	0	66	0	42	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35059344--35059400	9	6.3	9	82	15	55	5	38	3	52	1.41
35067107--35067153	18	2.6	18	83	6	60	17	21	23	38	1.93
35078320--35078364	20	2.2	20	84	0	54	33	15	2	48	1.57
35088608--35088714	28	3.8	28	80	4	90	21	17	24	36	1.95
35089982--35090464	137	3.5	137	87	2	684	40	9	5	44	1.58
35092114--35092195	23	3.6	22	80	3	92	14	2	39	43	1.59
35106336--35106375	17	2.3	18	86	4	55	35	15	2	47	1.58
35110246--35110372	30	4.3	29	78	6	94	37	22	6	33	1.80
35110454--35110493	17	2.4	17	100	0	80	15	20	0	65	1.28
35121007--35121050	12	3.7	12	87	0	61	27	9	11	52	1.67
35121605--35121712	50	2.2	50	84	0	135	35	17	24	23	1.95
35121834--35122046	39	5.4	39	77	5	205	30	24	16	27	1.97
35121897--35122046	79	1.9	79	88	0	228	32	24	16	26	1.96
35122172--35122334	51	3.2	52	69	19	128	34	19	22	23	1.97
35123189--35123231	16	2.7	16	81	0	59	30	4	0	65	1.13
35123189--35123246	29	2.0	30	80	16	68	29	3	0	67	1.07
35123959--35124022	30	2.2	29	88	5	94	40	17	4	37	1.70
35123972--35124153	30	6.1	29	77	11	163	40	21	3	34	1.70
35123972--35124153	60	3.1	58	79	7	188	40	21	3	34	1.70
35125385--35125433	23	2.1	23	92	0	80	28	10	14	46	1.77
35130051--35130238	93	2.0	93	89	0	286	19	22	10	47	1.79
35131534--35131579	15	3.2	15	78	6	51	30	4	15	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35150330--35150371	18	2.3	18	87	0	57	19	45	11	23	1.83
35157983--35158044	29	2.1	31	82	17	78	74	1	16	8	1.13
35160936--35160994	26	2.2	28	84	6	77	64	1	22	11	1.35
35169225--35169279	20	2.7	21	83	8	69	60	3	0	36	1.15
35169395--35169467	22	3.2	22	75	7	58	52	2	2	42	1.30
35169789--35169842	18	3.3	18	68	24	55	42	1	0	55	1.10
35169786--35169876	31	3.1	30	84	10	109	42	2	1	53	1.20
35169788--35169895	28	3.8	27	81	14	87	42	2	0	53	1.21
35169824--35169901	27	2.9	26	79	11	79	42	2	1	53	1.22
35172836--35172882	23	2.0	25	87	8	71	12	10	12	63	1.52
35174723--35174794	21	3.4	21	92	3	117	48	11	19	20	1.79
35179546--35179600	22	2.6	21	88	5	92	49	10	20	20	1.78
35184396--35184460	24	2.6	24	83	9	69	44	3	23	29	1.68
35186362--35186441	25	3.2	25	90	0	124	52	6	13	27	1.64
35188140--35188233	46	2.1	44	88	7	136	29	5	27	37	1.79
35188140--35188245	46	2.5	41	81	15	103	31	5	26	36	1.80
35188323--35188476	56	2.7	56	83	6	175	51	3	3	42	1.34
35189690--35189819	51	2.5	51	91	0	197	30	26	14	28	1.95
35196863--35197049	51	3.6	50	86	4	232	28	23	14	33	1.94
35196863--35197049	102	1.8	104	84	4	263	28	23	14	33	1.94
35201636--35201704	33	2.1	32	89	2	102	40	17	4	37	1.69
35205046--35205226	52	3.5	52	89	3	274	37	22	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35212168--35212354	52	3.6	52	88	4	279	34	22	15	26	1.94
35215644--35215837	37	5.2	37	81	2	212	34	26	11	27	1.91
35221306--35221370	22	2.9	22	83	2	76	15	23	18	43	1.88
35222856--35223051	37	5.3	37	90	0	302	32	26	12	29	1.93
35227644--35227715	33	2.2	33	85	7	94	44	15	2	37	1.61
35228177--35228276	37	2.7	37	87	0	146	34	11	13	42	1.79
35231299--35231376	14	5.6	14	75	0	57	19	17	7	55	1.66
35231326--35231384	28	2.1	28	87	0	82	23	20	3	52	1.61
35231526--35232031	252	2.0	252	94	1	890	33	11	17	37	1.86
35233440--35233622	63	2.9	63	71	6	172	33	33	8	24	1.86
35233424--35233653	63	3.6	62	70	10	169	33	32	9	25	1.87
35238656--35238738	31	2.7	30	72	5	85	10	26	4	57	1.52
35240411--35240506	37	2.6	38	75	6	88	29	17	27	26	1.98
35244719--35244768	18	2.8	18	85	11	75	42	8	12	38	1.71
35245201--35245373	72	2.4	72	93	0	292	23	5	15	54	1.62
35247052--35247092	14	2.9	15	75	20	52	51	0	0	48	1.00
35247052--35247096	21	2.1	21	87	0	63	51	0	0	48	1.00
35247303--35247353	13	3.9	13	72	10	50	35	23	5	35	1.79
35248545--35248643	37	2.6	37	75	9	92	25	19	21	34	1.96
35248555--35248839	118	2.4	118	78	3	288	28	17	21	32	1.96
35250215--35250244	12	2.4	13	94	5	53	23	10	0	66	1.21
35250593--35250642	21	2.5	20	80	6	57	46	2	6	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35251369--35251406	18	2.1	18	100	0	76	36	26	0	36	1.57
35256602--35256747	58	2.5	58	83	8	181	45	2	1	50	1.24
35256843--35256930	44	2.0	46	84	8	119	38	21	5	34	1.77
35256917--35256970	16	3.4	16	81	0	63	27	20	3	48	1.66
35264038--35264095	18	3.2	18	87	0	89	24	31	18	25	1.98
35264047--35264103	18	3.2	18	87	0	69	24	26	21	28	1.99
35276075--35276105	2	15.5	2	100	0	62	48	0	0	51	1.00
35276199--35276330	40	3.3	40	92	0	228	50	4	21	22	1.67
35277152--35277181	13	2.4	13	94	5	53	36	0	30	33	1.58
35279898--35279940	14	3.1	14	72	0	50	53	0	0	46	1.00
35279962--35280019	32	1.9	30	86	13	84	15	31	0	53	1.42
35280650--35280709	9	7.1	9	71	24	51	50	0	0	50	1.00
35280648--35280708	30	2.1	29	88	11	90	47	0	0	52	1.00
35280669--35280711	21	2.0	23	90	9	72	53	0	0	46	1.00
35285579--35285613	17	2.1	17	89	10	54	74	0	8	17	1.06
35295357--35295382	3	8.7	3	100	0	52	34	0	0	65	0.93
35301187--35301538	23	15.3	23	86	0	479	46	12	5	36	1.64
35301187--35301539	92	3.8	92	89	0	535	45	12	5	36	1.64
35310479--35310914	23	19.0	23	87	1	615	46	13	4	35	1.64
35318372--35318417	18	2.5	19	86	6	60	4	30	2	63	1.26
35321498--35321819	159	2.0	159	89	2	495	27	17	23	31	1.97
35322728--35322758	15	2.1	15	93	0	53	64	9	0	25	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35323495--35323586	42	2.2	43	80	7	116	17	23	16	42	1.88
35329975--35329999	11	2.3	11	100	0	50	56	16	0	28	1.41
35330776--35330895	41	2.9	42	82	4	156	24	23	13	39	1.90
35330832--35331011	82	2.2	78	75	9	171	21	22	12	43	1.86
35332569--35332594	7	3.7	7	100	0	52	30	0	0	69	0.89
35332456--35332618	58	2.8	57	82	10	195	43	1	1	53	1.19
35333409--35333473	30	2.1	30	85	5	85	55	6	0	38	1.25
35333437--35333509	36	2.1	35	87	7	103	46	4	2	46	1.36
35333768--35333807	19	2.0	19	90	9	62	65	2	32	0	1.06
35336809--35336867	21	2.9	20	76	14	66	25	0	30	44	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171